The exit status of the task that caused the workflow execution to fail was: null.
The full error message was:
Error executing process > 'NFCORE_SEQINSPECTOR:SEQINSPECTOR:FASTQSCREEN_FASTQSCREEN (SAMPLE_PAIRED_END_2_2)'
Caused by:
Process requirement exceeds available memory -- req: 36 GB; avail: 16 GB
Command executed:
echo 'DATABASE Ecoli ./ref1/genome bowtie2
DATABASE PhiX ./ref2/genome bowtie2
DATABASE Scerevisiae ./ref3/genome bowtie2' > fastq_screen.conf
fastq_screen \
--conf fastq_screen.conf \
--threads 6 \
Bpacificus-ATCC10987-rep2-sWGS-MiSeqi100-241111_S2_L001_R1_001.fastq.gz Bpacificus-ATCC10987-rep2-sWGS-MiSeqi100-241111_S2_L001_R2_001.fastq.gz \
mv Bpacificus-ATCC10987-rep2-sWGS-MiSeqi100-241111_S2_L001_R1_001_screen.txt SAMPLE_PAIRED_END_2_2_1_screen.txt && mv Bpacificus-ATCC10987-rep2-sWGS-MiSeqi100-241111_S2_L001_R2_001_screen.txt SAMPLE_PAIRED_END_2_2_2_screen.txt && mv Bpacificus-ATCC10987-rep2-sWGS-MiSeqi100-241111_S2_L001_R1_001_screen.html SAMPLE_PAIRED_END_2_2_1_screen.html && mv Bpacificus-ATCC10987-rep2-sWGS-MiSeqi100-241111_S2_L001_R2_001_screen.html SAMPLE_PAIRED_END_2_2_2_screen.html && mv Bpacificus-ATCC10987-rep2-sWGS-MiSeqi100-241111_S2_L001_R1_001_screen.png SAMPLE_PAIRED_END_2_2_1_screen.png && mv Bpacificus-ATCC10987-rep2-sWGS-MiSeqi100-241111_S2_L001_R2_001_screen.png SAMPLE_PAIRED_END_2_2_2_screen.png
fastq_screen_version=$(fastq_screen --version 2>&1 | sed 's/^.*FastQ Screen v//; s/ .*$//')
echo "\"NFCORE_SEQINSPECTOR:SEQINSPECTOR:FASTQSCREEN_FASTQSCREEN\":" > versions.yml
echo " fastqscreen: $fastq_screen_version" >> versions.yml
Command exit status:
-
Command output:
(empty)
Work dir:
/Users/agrimabhatt/seqinspector/work/14/4e6d5ede6fc8b5cae25918130a5b37
Container:
community.wave.seqera.io/library/fastq-screen_perl-gdgraph:5c1786a5d5bc1309
Tip: you can replicate the issue by changing to the process work dir and entering the command `bash .command.run`
nextflow run main.nf -profile test,docker --input /Users/agrimabhatt/pipeline/testdata/testdata/Miseq_PairedEnd/samplesheet.csv --outdir result -with-report51ae67c7a1786a7937e7c520871990bd9c9c582b-110a-4f3b-96e8-c8f423918c58These plots give an overview of the distribution of resource usage for each process.
This table shows information about each task in the workflow. Use the search box on the right to filter rows for specific values. Clicking headers will sort the table by that value and scrolling side to side will reveal more columns.